Structure of PDB 3pgy Chain A Binding Site BS01

Receptor Information
>3pgy Chain A (length=402) Species: 93062 (Staphylococcus aureus subsp. aureus COL) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNK
YAEGYPGRRGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGPQANMAVY
LVALEMGDTVLGMNLSHPVNFSGKFYNFVEYGVDKDTERINYDEVRKLAL
EHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLH
PNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLE
HVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDN
HLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLG
TPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPL
YQ
Ligand information
Ligand IDGLY
InChIInChI=1S/C2H5NO2/c3-1-2(4)5/h1,3H2,(H,4,5)
InChIKeyDHMQDGOQFOQNFH-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C(C(=O)O)N
CACTVS 3.341NCC(O)=O
ACDLabs 10.04O=C(O)CN
FormulaC2 H5 N O2
NameGLYCINE
ChEMBLCHEMBL773
DrugBankDB00145
ZINCZINC000004658552
PDB chain3pgy Chain A Residue 510 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3pgy Serine hydroxymethyltransferase from Staphylococcus aureus, S95P mutant
Resolution1.92 Å
Binding residue
(original residue number in PDB)		E27 F34
Binding residue
(residue number reindexed from 1)		E27 F34
Annotation score5
Enzymatic activity
Catalytic site (original residue number in PDB) Y51 E53 D197 T223 K226 R232
Catalytic site (residue number reindexed from 1) Y51 E53 D187 T213 K216 R222
Enzyme Commision number 2.1.2.1: glycine hydroxymethyltransferase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004372 glycine hydroxymethyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0030170 pyridoxal phosphate binding
GO:0050897 cobalt ion binding
GO:0070905 serine binding
Biological Process
GO:0006545 glycine biosynthetic process
GO:0006565 L-serine catabolic process
GO:0006730 one-carbon metabolic process
GO:0008652 amino acid biosynthetic process
GO:0019264 glycine biosynthetic process from serine
GO:0035999 tetrahydrofolate interconversion
GO:0046653 tetrahydrofolate metabolic process
GO:0046655 folic acid metabolic process
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3pgy, PDBe:3pgy, PDBj:3pgy
PDBsum3pgy
PubMed
UniProtQ5HE87|GLYA_STAAC Serine hydroxymethyltransferase (Gene Name=glyA)

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